KERMIT -- Research Unit Knowledge-based Systems

Michiel STOCK

michiel.stock@ugent.be
@KERMIT, office 110.54
(+32) 9 264.60.18

Stock Michiel
https://orcid.org/0000-0003-0903-6061
Biblio UGent
Google Scholar
#michielstock
https://michielstock.github.io/

Research Interests:

Machine learning methods for understanding, predicting and controlling community ecosystems.

Learning from networks

Journal papers

All
2024 (9)
2023 (2)
2022 (10)
2021 (10)
2020 (6)
2019 (3)
2018 (2)
2017 (2)
2016 (2)
2015 (1)
2014 (2)
2013 (2)
2012 (1)

(9) Hyperdimensional computing: a fast, robust and interpretable paradigm for biological data
M. Stock, D. Boeckaerts, P. Dewulf, S. Taelman, M. Van Haeverbeke, W. Van Criekinge and B. De Baets
(2024) PLOS COMPUTATIONAL BIOLOGY. 20, e1012426 .

(8) DepoScope: accurate phage depolymerase annotation and domain delineation using large language models
R. Concha-Eloko, M. Stock, B. De Baets, Y. Briers, R. Sanjuan, P. Domingo-Calap and D. Boeckaerts
(2024) PLOS COMPUTATIONAL BIOLOGY. 20, e1011831.

(7) Link prediction in stagewise graphs
P. Dewulf, M. Stock and B. De Baets
(2024) IEEE TRANSACTIONS ON DATA AND KNOWLEDGE ENGINEERING. 36, 3252-3264.

(6) Prediction of Klebsiella phage-host specificity at the strain level
D. Boeckaerts, M. Stock, C. Ferriol-González, J. Oteo-Iglesias, R. Sanjuán, P. Domingo-Calap, B. De Baets and Y. Briers
(2024) NATURE COMMUNICATIONS. 15, 4355.

(5) Engineering is evolution : a perspective on design processes to engineer biology
S. D. Castle, M. Stock and T. E. Gorochowski
(2024) NATURE COMMUNICATIONS. 15, 3640.

(4) Plant science in the age of simulation intelligence
M. Stock, O. Pieters, T. De Swaef and F. wyffels
(2024) FRONTIERS IN PLANT SCIENCE. 14, 1299208.

(3) The role of Helicobacter suis, Fusobacterium gastrosuis, and the pars oesophageal microbiota in gastric ulceration in slaughter pigs receiving meal or pelleted feed
E. Taillieu, S. Taelman, S. De Bruyckere, E. Goossens, I. Chantziaras, C. Van Steenkiste, P. Yde, S. Hanssens, D. De Meyer, W. Van Criekinge, M. Stock, D. Maes, K. Chiers and F. Haesebrouck
(2024) VETERINARY RESEARCH. 55, 15.

(2) Open-endedness in synthetic biology: A route to continual innovation for biological design
M. Stock and T. E. Gorochowski
(2024) SCIENCE ADVANCES. 10, eadi3621.

(1) Impedimetric biofilm characterisation with microelectrode arrays using equivalent electrical circuit features and ensemble classifiers
M. Van Haeverbeke, C. Cums, T. Vackier, D. Braeken, M. Stock, H. Steenackers and B. De Baets
(2024) CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS. 244, 105048.

Date	Title
19/01/2019	EOS-prize 2018 goes to Sarah Vanbesien
26/10/2018	Michiel Stock wins public prize TEDxGhent PhD contest
08/03/2018	Best Poster Presentation Award for Michiel Stock
02/10/2017	Michiel Stock reaches the Flemish PhD Cup Final
12/12/2016	Gold medal for student entry at the iGEM competition in Boston
18/08/2014	2015 IEEE CIS Outstanding TFS Paper Award

Name	Research Topic
Németh Victor
Spanoghe Bram	Probabilistic modelling of plant growth

Name	Title	Date
S. Taelman	Beyond correlations: a causal perspective on host-microbiome interactions	29/08/2024
P. Dewulf	Exploiting data compositionality using tensor products and hyperdimensional computing	13/12/2023
D. Boeckaerts	Predicting and understanding phage-host interactions with machine learning tools based on phage receptor-binding proteins	19/10/2023
M. Van Haeverbeke	Advances in impedimetric modelling of electrochemical systems in engineering and the life sciences	07/07/2023
O. Pieters	Reservoir computing with plants	08/02/2022

Name	Title	Date
H. B. Karaaslan	Leveraging probabilistic programming in causal inference for precision medicine	2022 - 2024
M. Fatjanov	The potential of hyperdimensional computing for protein sequence representation	2022 - 2023
Y. Bae	Drug-drug interaction prediction for side effects, diseases, and cell lines using three-step kernel ridge regression	2021 - 2022
S. Van Parys	BIOBOTS: a new type of multicellularity	2021 - 2022
S. Van Hoye	Evolution and design of metabolic networks using quality-diversity optimization algorithms	2021 - 2022
J. De Landsheere	Data-driven prediction of pharmaceutical granules' size	2021 - 2022
W. Decrop	Computational prediction of bacteria-phage interactions of Escherichia coli through omics data analysis and machine learning	2021 - 2022
D. Snoeck	A data-based view for brewing	2021 - 2022
B. Spanoghe	Probabilistic programming for Bayesian modeling and its applications in biology	2021 - 2022
W. Van Belle	Automating the design of biological robots using MAP-Elites	2021 - 2022
Q. Q. Li	Applications of differentiable dynamic programming in biology	2020 - 2021
T. Vanneste	Predicting interactions between bacteria and their prophages based on genomic sequence data	2019 - 2020
T. Ntumba	Prediction of water quality parameters of Flemish surface waters using machine learning techniques	2019 - 2020
J. Vermout	A data-driven approach to the design of new cocktail recipes	2019 - 2020
A. Deloose	Acoustic monitoring of bats with self-organizing maps	2018 - 2019
S. Taelman	A dual computational approach to map domain architecture in phage lytic proteins	2018 - 2019
L. Hoebeke	Automated recognition of people and identification of animal species in camera trap images	2017 - 2018

Michiel STOCK

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